HEADER HYDROLASE 27-JUN-03 1PV9 TITLE PROLIDASE FROM PYROCOCCUS FURIOSUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: XAA-PRO DIPEPTIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: X-PRO DIPEPTIDASE, PROLINE DIPEPTIDASE, PROLIDASE, COMPND 5 IMIDODIPEPTIDASE; COMPND 6 EC: 3.4.13.9; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 2261; SOURCE 4 GENE: PEPQ OR PF1343; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PET-21B; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-PROL KEYWDS PROLIDASE, PEPTIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.J.MAHER,M.GHOSH,A.M.GRUNDEN,A.L.MENON,M.W.ADAMS,H.C.FREEMAN, AUTHOR 2 J.M.GUSS REVDAT 4 14-FEB-24 1PV9 1 REMARK LINK REVDAT 3 13-JUL-11 1PV9 1 VERSN REVDAT 2 24-FEB-09 1PV9 1 VERSN REVDAT 1 23-MAR-04 1PV9 0 JRNL AUTH M.J.MAHER,M.GHOSH,A.M.GRUNDEN,A.L.MENON,M.W.ADAMS, JRNL AUTH 2 H.C.FREEMAN,J.M.GUSS JRNL TITL STRUCTURE OF THE PROLIDASE FROM PYROCOCCUS FURIOSUS. JRNL REF BIOCHEMISTRY V. 43 2771 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15005612 JRNL DOI 10.1021/BI0356451 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.WILLINGHAM,M.J.MAHER,A.M.GRUNDEN,M.GHOSH,M.W.W.ADAMS, REMARK 1 AUTH 2 H.C.FREEMAN,J.M.GUSS REMARK 1 TITL CRYSTALLIZATION AND CHARACTERIZATION OF THE PROLIDASE FROM REMARK 1 TITL 2 PYROCOCCUS FURIOSUS. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 57 428 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444900020187 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.GHOSH,A.M.GRUNDEN,D.M.DUNN,R.WEISS,M.W.W.ADAMS REMARK 1 TITL CHARACTERIZATION OF NATIVE AND RECOMBINANT FORMS OF AN REMARK 1 TITL 2 UNUSUAL COBALT-DEPENDENT PROLINE DIPEPTIDASE (PROLIDASE) REMARK 1 TITL 3 FROM THE HYPERTHERMOPHILIC ARCHAEON PYROCOCCUS FURIOSUS. REMARK 1 REF J.BACTERIOL. V. 180 4781 1998 REMARK 1 REFN ISSN 0021-9193 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 45667 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.245 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2432 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3420 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 179 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5196 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.26000 REMARK 3 B22 (A**2) : -2.80000 REMARK 3 B33 (A**2) : 1.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.01000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.238 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.196 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.175 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.321 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5276 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7094 ; 0.848 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 648 ; 4.501 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 804 ; 0.056 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3848 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2455 ; 0.161 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 253 ; 0.094 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 16 ; 0.136 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.036 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3239 ; 0.469 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5241 ; 0.886 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2037 ; 1.250 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1853 ; 1.920 ; 8.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 8 A 117 REMARK 3 RESIDUE RANGE : A 118 A 345 REMARK 3 ORIGIN FOR THE GROUP (A): 62.2123 35.7038 30.9133 REMARK 3 T TENSOR REMARK 3 T11: 0.0720 T22: 0.1469 REMARK 3 T33: 0.1386 T12: -0.0395 REMARK 3 T13: -0.0939 T23: 0.0377 REMARK 3 L TENSOR REMARK 3 L11: 1.9727 L22: 3.0361 REMARK 3 L33: 2.0748 L12: 0.0642 REMARK 3 L13: -0.8362 L23: 0.6155 REMARK 3 S TENSOR REMARK 3 S11: -0.0341 S12: -0.0440 S13: -0.2319 REMARK 3 S21: 0.3850 S22: -0.0776 S23: -0.2034 REMARK 3 S31: 0.0073 S32: 0.2293 S33: 0.1117 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 4 B 117 REMARK 3 RESIDUE RANGE : B 118 B 345 REMARK 3 ORIGIN FOR THE GROUP (A): 62.3032 44.3691 8.8716 REMARK 3 T TENSOR REMARK 3 T11: 0.3107 T22: 0.3296 REMARK 3 T33: 0.0719 T12: 0.1379 REMARK 3 T13: 0.0144 T23: 0.0844 REMARK 3 L TENSOR REMARK 3 L11: 2.6376 L22: 4.7821 REMARK 3 L33: 1.3233 L12: 0.8156 REMARK 3 L13: -0.6790 L23: -0.5177 REMARK 3 S TENSOR REMARK 3 S11: 0.3014 S12: 0.4837 S13: 0.0545 REMARK 3 S21: -0.7519 S22: -0.4553 S23: -0.3495 REMARK 3 S31: -0.1501 S32: -0.0092 S33: 0.1539 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PV9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUL-03. REMARK 100 THE DEPOSITION ID IS D_1000019600. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-MAR-00 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.282, 1.283, 1.240, 1.333 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51843 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.33400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.980 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, MAGNESIUM ACETATE, TRIS-HCL, REMARK 280 PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 48.61350 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A HOMODIMER. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -177.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 LYS A 2 REMARK 465 GLU A 3 REMARK 465 ARG A 4 REMARK 465 LEU A 5 REMARK 465 GLU A 6 REMARK 465 LYS A 7 REMARK 465 ASN A 107 REMARK 465 GLU A 346 REMARK 465 LEU A 347 REMARK 465 LEU A 348 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 GLU B 3 REMARK 465 VAL B 227 REMARK 465 GLY B 228 REMARK 465 SER B 229 REMARK 465 PRO B 230 REMARK 465 ASN B 231 REMARK 465 GLU B 232 REMARK 465 LYS B 233 REMARK 465 GLN B 234 REMARK 465 ARG B 235 REMARK 465 GLU B 236 REMARK 465 ILE B 237 REMARK 465 TYR B 238 REMARK 465 GLU B 239 REMARK 465 ILE B 240 REMARK 465 VAL B 241 REMARK 465 LEU B 242 REMARK 465 GLU B 243 REMARK 465 ASP B 276 REMARK 465 SER B 297 REMARK 465 GLN B 298 REMARK 465 ILE B 318 REMARK 465 PRO B 319 REMARK 465 LYS B 320 REMARK 465 LEU B 321 REMARK 465 GLU B 346 REMARK 465 LEU B 347 REMARK 465 LEU B 348 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LEU A 82 46.11 -96.68 REMARK 500 HIS A 192 44.14 -105.16 REMARK 500 HIS A 216 -11.72 80.30 REMARK 500 LYS A 320 -8.80 66.63 REMARK 500 THR A 333 -159.77 -99.15 REMARK 500 HIS B 192 49.76 -91.00 REMARK 500 HIS B 216 -3.26 76.53 REMARK 500 ALA B 252 79.80 -66.62 REMARK 500 LYS B 342 78.71 -119.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 209 OD1 REMARK 620 2 ASP A 220 OD1 107.2 REMARK 620 3 GLU A 327 OE1 105.5 92.4 REMARK 620 4 HOH A 502 O 128.4 112.0 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 220 OD2 REMARK 620 2 HIS A 284 NE2 88.5 REMARK 620 3 GLU A 313 OE2 163.4 88.0 REMARK 620 4 GLU A 327 OE2 90.1 125.2 78.8 REMARK 620 5 HOH A 502 O 97.1 130.6 97.5 104.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 209 OD1 REMARK 620 2 ASP B 209 OD2 53.9 REMARK 620 3 ASP B 220 OD1 110.7 161.1 REMARK 620 4 GLU B 327 OE1 100.2 110.1 81.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 220 OD2 REMARK 620 2 HIS B 284 NE2 98.7 REMARK 620 3 GLU B 313 OE2 168.2 92.5 REMARK 620 4 GLU B 327 OE2 85.7 134.1 83.7 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 402 DBREF 1PV9 A 1 348 UNP P81535 PEPQ_PYRFU 1 348 DBREF 1PV9 B 1 348 UNP P81535 PEPQ_PYRFU 1 348 SEQRES 1 A 348 MET LYS GLU ARG LEU GLU LYS LEU VAL LYS PHE MET ASP SEQRES 2 A 348 GLU ASN SER ILE ASP ARG VAL PHE ILE ALA LYS PRO VAL SEQRES 3 A 348 ASN VAL TYR TYR PHE SER GLY THR SER PRO LEU GLY GLY SEQRES 4 A 348 GLY TYR ILE ILE VAL ASP GLY ASP GLU ALA THR LEU TYR SEQRES 5 A 348 VAL PRO GLU LEU GLU TYR GLU MET ALA LYS GLU GLU SER SEQRES 6 A 348 LYS LEU PRO VAL VAL LYS PHE LYS LYS PHE ASP GLU ILE SEQRES 7 A 348 TYR GLU ILE LEU LYS ASN THR GLU THR LEU GLY ILE GLU SEQRES 8 A 348 GLY THR LEU SER TYR SER MET VAL GLU ASN PHE LYS GLU SEQRES 9 A 348 LYS SER ASN VAL LYS GLU PHE LYS LYS ILE ASP ASP VAL SEQRES 10 A 348 ILE LYS ASP LEU ARG ILE ILE LYS THR LYS GLU GLU ILE SEQRES 11 A 348 GLU ILE ILE GLU LYS ALA CYS GLU ILE ALA ASP LYS ALA SEQRES 12 A 348 VAL MET ALA ALA ILE GLU GLU ILE THR GLU GLY LYS ARG SEQRES 13 A 348 GLU ARG GLU VAL ALA ALA LYS VAL GLU TYR LEU MET LYS SEQRES 14 A 348 MET ASN GLY ALA GLU LYS PRO ALA PHE ASP THR ILE ILE SEQRES 15 A 348 ALA SER GLY HIS ARG SER ALA LEU PRO HIS GLY VAL ALA SEQRES 16 A 348 SER ASP LYS ARG ILE GLU ARG GLY ASP LEU VAL VAL ILE SEQRES 17 A 348 ASP LEU GLY ALA LEU TYR ASN HIS TYR ASN SER ASP ILE SEQRES 18 A 348 THR ARG THR ILE VAL VAL GLY SER PRO ASN GLU LYS GLN SEQRES 19 A 348 ARG GLU ILE TYR GLU ILE VAL LEU GLU ALA GLN LYS ARG SEQRES 20 A 348 ALA VAL GLU ALA ALA LYS PRO GLY MET THR ALA LYS GLU SEQRES 21 A 348 LEU ASP SER ILE ALA ARG GLU ILE ILE LYS GLU TYR GLY SEQRES 22 A 348 TYR GLY ASP TYR PHE ILE HIS SER LEU GLY HIS GLY VAL SEQRES 23 A 348 GLY LEU GLU ILE HIS GLU TRP PRO ARG ILE SER GLN TYR SEQRES 24 A 348 ASP GLU THR VAL LEU LYS GLU GLY MET VAL ILE THR ILE SEQRES 25 A 348 GLU PRO GLY ILE TYR ILE PRO LYS LEU GLY GLY VAL ARG SEQRES 26 A 348 ILE GLU ASP THR VAL LEU ILE THR GLU ASN GLY ALA LYS SEQRES 27 A 348 ARG LEU THR LYS THR GLU ARG GLU LEU LEU SEQRES 1 B 348 MET LYS GLU ARG LEU GLU LYS LEU VAL LYS PHE MET ASP SEQRES 2 B 348 GLU ASN SER ILE ASP ARG VAL PHE ILE ALA LYS PRO VAL SEQRES 3 B 348 ASN VAL TYR TYR PHE SER GLY THR SER PRO LEU GLY GLY SEQRES 4 B 348 GLY TYR ILE ILE VAL ASP GLY ASP GLU ALA THR LEU TYR SEQRES 5 B 348 VAL PRO GLU LEU GLU TYR GLU MET ALA LYS GLU GLU SER SEQRES 6 B 348 LYS LEU PRO VAL VAL LYS PHE LYS LYS PHE ASP GLU ILE SEQRES 7 B 348 TYR GLU ILE LEU LYS ASN THR GLU THR LEU GLY ILE GLU SEQRES 8 B 348 GLY THR LEU SER TYR SER MET VAL GLU ASN PHE LYS GLU SEQRES 9 B 348 LYS SER ASN VAL LYS GLU PHE LYS LYS ILE ASP ASP VAL SEQRES 10 B 348 ILE LYS ASP LEU ARG ILE ILE LYS THR LYS GLU GLU ILE SEQRES 11 B 348 GLU ILE ILE GLU LYS ALA CYS GLU ILE ALA ASP LYS ALA SEQRES 12 B 348 VAL MET ALA ALA ILE GLU GLU ILE THR GLU GLY LYS ARG SEQRES 13 B 348 GLU ARG GLU VAL ALA ALA LYS VAL GLU TYR LEU MET LYS SEQRES 14 B 348 MET ASN GLY ALA GLU LYS PRO ALA PHE ASP THR ILE ILE SEQRES 15 B 348 ALA SER GLY HIS ARG SER ALA LEU PRO HIS GLY VAL ALA SEQRES 16 B 348 SER ASP LYS ARG ILE GLU ARG GLY ASP LEU VAL VAL ILE SEQRES 17 B 348 ASP LEU GLY ALA LEU TYR ASN HIS TYR ASN SER ASP ILE SEQRES 18 B 348 THR ARG THR ILE VAL VAL GLY SER PRO ASN GLU LYS GLN SEQRES 19 B 348 ARG GLU ILE TYR GLU ILE VAL LEU GLU ALA GLN LYS ARG SEQRES 20 B 348 ALA VAL GLU ALA ALA LYS PRO GLY MET THR ALA LYS GLU SEQRES 21 B 348 LEU ASP SER ILE ALA ARG GLU ILE ILE LYS GLU TYR GLY SEQRES 22 B 348 TYR GLY ASP TYR PHE ILE HIS SER LEU GLY HIS GLY VAL SEQRES 23 B 348 GLY LEU GLU ILE HIS GLU TRP PRO ARG ILE SER GLN TYR SEQRES 24 B 348 ASP GLU THR VAL LEU LYS GLU GLY MET VAL ILE THR ILE SEQRES 25 B 348 GLU PRO GLY ILE TYR ILE PRO LYS LEU GLY GLY VAL ARG SEQRES 26 B 348 ILE GLU ASP THR VAL LEU ILE THR GLU ASN GLY ALA LYS SEQRES 27 B 348 ARG LEU THR LYS THR GLU ARG GLU LEU LEU HET ZN A 401 1 HET ZN A 402 1 HET ZN B 401 1 HET ZN B 402 1 HETNAM ZN ZINC ION FORMUL 3 ZN 4(ZN 2+) FORMUL 7 HOH *176(H2 O) HELIX 1 1 LEU A 8 ASN A 15 1 8 HELIX 2 2 VAL A 28 GLY A 33 1 6 HELIX 3 3 GLU A 57 SER A 65 1 9 HELIX 4 4 ASP A 76 LEU A 82 1 7 HELIX 5 5 SER A 95 LYS A 105 1 11 HELIX 6 6 ILE A 114 ILE A 123 1 10 HELIX 7 7 THR A 126 ILE A 151 1 26 HELIX 8 8 ARG A 156 ASN A 171 1 16 HELIX 9 9 HIS A 186 LEU A 190 5 5 HELIX 10 10 ASN A 231 ALA A 252 1 22 HELIX 11 11 THR A 257 TYR A 272 1 16 HELIX 12 12 TYR A 274 PHE A 278 5 5 HELIX 13 13 ARG B 4 ASN B 15 1 12 HELIX 14 14 VAL B 28 GLY B 33 1 6 HELIX 15 15 GLU B 57 GLU B 63 1 7 HELIX 16 16 LYS B 74 ASP B 76 5 3 HELIX 17 17 GLU B 77 LEU B 82 1 6 HELIX 18 18 SER B 95 SER B 106 1 12 HELIX 19 19 ILE B 114 ILE B 123 1 10 HELIX 20 20 THR B 126 ILE B 151 1 26 HELIX 21 21 ARG B 156 ASN B 171 1 16 HELIX 22 22 SER B 184 LEU B 190 5 7 HELIX 23 23 ALA B 244 ALA B 252 1 9 HELIX 24 24 THR B 257 GLY B 273 1 17 SHEET 1 A 6 VAL A 69 PHE A 72 0 SHEET 2 A 6 GLU A 48 PRO A 54 1 N LEU A 51 O VAL A 70 SHEET 3 A 6 TYR A 41 ASP A 45 -1 N TYR A 41 O TYR A 52 SHEET 4 A 6 ARG A 19 ILE A 22 -1 N ILE A 22 O ILE A 42 SHEET 5 A 6 THR A 87 ILE A 90 1 O GLY A 89 N ARG A 19 SHEET 6 A 6 GLU A 110 LYS A 113 1 O GLU A 110 N LEU A 88 SHEET 1 B 3 LYS A 175 PRO A 176 0 SHEET 2 B 3 ALA A 212 TYR A 214 -1 O LEU A 213 N LYS A 175 SHEET 3 B 3 TYR A 217 ASN A 218 -1 O TYR A 217 N TYR A 214 SHEET 1 C 3 ILE A 181 SER A 184 0 SHEET 2 C 3 LEU A 205 LEU A 210 -1 O ASP A 209 N ILE A 181 SHEET 3 C 3 ILE A 221 VAL A 226 -1 O ILE A 225 N VAL A 206 SHEET 1 D 2 GLY A 283 GLY A 285 0 SHEET 2 D 2 GLU A 292 ILE A 296 -1 O GLU A 292 N GLY A 285 SHEET 1 E 3 VAL A 309 ILE A 312 0 SHEET 2 E 3 ASP A 328 ILE A 332 -1 O VAL A 330 N ILE A 310 SHEET 3 E 3 ALA A 337 ARG A 339 -1 O LYS A 338 N LEU A 331 SHEET 1 F 2 GLY A 315 ILE A 318 0 SHEET 2 F 2 GLY A 322 ARG A 325 -1 O GLY A 322 N ILE A 318 SHEET 1 G 6 VAL B 69 PHE B 72 0 SHEET 2 G 6 GLU B 48 PRO B 54 1 N LEU B 51 O VAL B 70 SHEET 3 G 6 TYR B 41 ASP B 45 -1 N TYR B 41 O TYR B 52 SHEET 4 G 6 ARG B 19 ILE B 22 -1 N ILE B 22 O ILE B 42 SHEET 5 G 6 THR B 87 ILE B 90 1 O GLY B 89 N ARG B 19 SHEET 6 G 6 GLU B 110 LYS B 113 1 O GLU B 110 N LEU B 88 SHEET 1 H 3 LYS B 175 PRO B 176 0 SHEET 2 H 3 ALA B 212 TYR B 214 -1 O LEU B 213 N LYS B 175 SHEET 3 H 3 TYR B 217 ASN B 218 -1 O TYR B 217 N TYR B 214 SHEET 1 I 3 ILE B 181 ALA B 183 0 SHEET 2 I 3 VAL B 206 LEU B 210 -1 O ASP B 209 N ILE B 181 SHEET 3 I 3 ILE B 221 ILE B 225 -1 O ARG B 223 N ILE B 208 SHEET 1 J 2 GLY B 283 GLY B 285 0 SHEET 2 J 2 GLU B 292 ILE B 296 -1 O ILE B 296 N GLY B 283 SHEET 1 K 3 VAL B 309 ILE B 312 0 SHEET 2 K 3 ASP B 328 THR B 333 -1 O VAL B 330 N ILE B 310 SHEET 3 K 3 GLY B 336 ARG B 339 -1 O LYS B 338 N LEU B 331 SHEET 1 L 2 GLY B 315 ILE B 316 0 SHEET 2 L 2 VAL B 324 ARG B 325 -1 O VAL B 324 N ILE B 316 LINK OD1 ASP A 209 ZN ZN A 402 1555 1555 2.09 LINK OD2 ASP A 220 ZN ZN A 401 1555 1555 2.18 LINK OD1 ASP A 220 ZN ZN A 402 1555 1555 2.06 LINK NE2 HIS A 284 ZN ZN A 401 1555 1555 2.13 LINK OE2 GLU A 313 ZN ZN A 401 1555 1555 2.28 LINK OE2 GLU A 327 ZN ZN A 401 1555 1555 2.07 LINK OE1 GLU A 327 ZN ZN A 402 1555 1555 1.99 LINK ZN ZN A 401 O HOH A 502 1555 1555 2.01 LINK ZN ZN A 402 O HOH A 502 1555 1555 2.11 LINK OD1 ASP B 209 ZN ZN B 402 1555 1555 1.93 LINK OD2 ASP B 209 ZN ZN B 402 1555 1555 2.60 LINK OD2 ASP B 220 ZN ZN B 401 1555 1555 2.16 LINK OD1 ASP B 220 ZN ZN B 402 1555 1555 2.18 LINK NE2 HIS B 284 ZN ZN B 401 1555 1555 1.96 LINK OE2 GLU B 313 ZN ZN B 401 1555 1555 2.61 LINK OE2 GLU B 327 ZN ZN B 401 1555 1555 2.33 LINK OE1 GLU B 327 ZN ZN B 402 1555 1555 2.31 CISPEP 1 TRP A 293 PRO A 294 0 -7.18 CISPEP 2 TRP B 293 PRO B 294 0 -4.51 SITE 1 AC1 6 ASP A 220 HIS A 284 GLU A 313 GLU A 327 SITE 2 AC1 6 ZN A 402 HOH A 502 SITE 1 AC2 6 ASP A 209 ASP A 220 THR A 222 GLU A 327 SITE 2 AC2 6 ZN A 401 HOH A 502 SITE 1 AC3 6 ASP B 220 HIS B 284 THR B 311 GLU B 313 SITE 2 AC3 6 GLU B 327 ZN B 402 SITE 1 AC4 6 PHE B 178 ASP B 209 ASP B 220 THR B 222 SITE 2 AC4 6 GLU B 327 ZN B 401 CRYST1 56.476 97.227 69.882 90.00 97.09 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017707 0.000000 0.002202 0.00000 SCALE2 0.000000 0.010285 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014420 0.00000